Using ChromEvol to Determine the Mode of Chromosomal Evolution

Marcial Escudero; Enrique Maguilla; José Ignacio Márquez-Corro; Santiago Martín-Bravo; Itay Mayrose; Anat Shafir; Lu Tan; Carrie Tribble; Rosana Zenil-Ferguson

doi:10.1007/978-1-0716-3226-0_32

Using ChromEvol to Determine the Mode of Chromosomal Evolution

Marcial Escudero, Enrique Maguilla, José Ignacio Márquez-Corro, Santiago Martín-Bravo, Itay Mayrose, Anat Shafir, Lu Tan, Carrie Tribble, Rosana Zenil-Ferguson

Biology

Research output: Chapter in Book/Report/Conference proceeding › Chapter › peer-review

3 Scopus citations

Abstract

The ChromEvol software was the first to implement a likelihood-based approach, using probabilistic models that depict the pattern of chromosome number change along a specified phylogeny. The initial models have been completed and expanded during the last years. New parameters that model polyploid chromosome evolution have been implemented in ChromEvol v.2. In recent years, new and more complex models have been developed. The BiChrom model is able to implement two distinct chromosome models for the two possible trait states of a binary character of interest. ChromoSSE jointly implements chromosome evolution, speciation, and extinction. In the near future, we will be able to study chromosome evolution with increasingly complex models.

Original language	English
Title of host publication	Methods in Molecular Biology
Pages	529-547
Number of pages	19
DOIs	https://doi.org/10.1007/978-1-0716-3226-0_32
State	Published - 2023

Publication series

Name	Methods in Molecular Biology
Volume	2672
ISSN (Print)	1064-3745
ISSN (Electronic)	1940-6029

Bibliographical note

Publisher Copyright:
© 2023, The Author(s), under exclusive license to Springer Science+Business Media, LLC, part of Springer Nature.

Funding

This work was supported by a grant to ME (MICINN, PGC2018-099608-B-I00). We thank the Andalusian Scientific Information Technology Center (CICA, Seville, Spain) for providing computational and research resources.

Funders	Funder number
Andalusian Scientific Information Technology Center
CICA

Keywords

BiChrom
ChromEvol
ChromoPlus
ChromoSSE
Chromosome count
Dysploidy
Phylogeny
Polyploidy
Probabilistic model

ASJC Scopus subject areas

Molecular Biology
Genetics

Access to Document

10.1007/978-1-0716-3226-0_32

Cite this

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abstract = "The ChromEvol software was the first to implement a likelihood-based approach, using probabilistic models that depict the pattern of chromosome number change along a specified phylogeny. The initial models have been completed and expanded during the last years. New parameters that model polyploid chromosome evolution have been implemented in ChromEvol v.2. In recent years, new and more complex models have been developed. The BiChrom model is able to implement two distinct chromosome models for the two possible trait states of a binary character of interest. ChromoSSE jointly implements chromosome evolution, speciation, and extinction. In the near future, we will be able to study chromosome evolution with increasingly complex models.",

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AU - Maguilla, Enrique

AU - Márquez-Corro, José Ignacio

AU - Martín-Bravo, Santiago

AU - Mayrose, Itay

AU - Shafir, Anat

AU - Tan, Lu

AU - Tribble, Carrie

AU - Zenil-Ferguson, Rosana

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KW - Polyploidy

KW - Probabilistic model

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Using ChromEvol to Determine the Mode of Chromosomal Evolution

Abstract

Publication series

Bibliographical note

Funding

Keywords

ASJC Scopus subject areas

Access to Document

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Cite this